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Data associated with selected splice site

Sequence

 atgc   intronic sequence     ATGC   exonic sequence

gtaagttacatgtgaccaccatctttcattaaatgacgtagacacgtagttgtaaacacacaaacgttgcattgactgatcctatactcgacacaaattttcagGCTGATTATTGTGGAGAGTCGATCGATCTTCCTTTTAACTGGAAGATCATGGAGTGGGCTCACAAAACCAAGCAAGTATTAGCCTCTGCCAAGCTGCCTC

Basic information

species Arabidopsis thaliana
transcript AT4G19860.1
intron # 7
splice site 3'
intron type U2

Mapped EST sequences

Showing partial alignments of ESTs and genomic sequences. See full alignments


 ATGC     EST sequence
 ATGC     genomic sequence (exon)
 ATGC     genomic sequence (truncated intron)


EST: gi|124777707|gb|EH867650.1|EH867650
EST:     ATCTCCTTCGAATAATACA                         GCTGATTATTGTGGAGAGTCGATCGATCTTCCTTTTAACTGGAAGATCATG
genomic: ATCTCTTTCGAATAATACAgtaagttaca ... aaattttcagGCTGATTATTGTGGAGAGTCGATCGATCTTCCTTTTAACTGGAAGATCATG
EST: gi|86073385|gb|DR369142.1|DR369142
EST:     GTAGCCTGGAGAGCCTTGAAGTTTTTACGAAATCTCTTTCGAATAATACA                         GCTGATTATTGTGGAGAGTCGATCGATCTTCCTTTTAACTGGAAGATCATG
genomic: GTAGCCTGGAGAGCCTTGAAGTTTTTACGAAATCTCTTTCGAATAATACAgtaagttaca ... aaattttcagGCTGATTATTGTGGAGAGTCGATCGATCTTCCTTTTAACTGGAAGATCATG
EST: gi|125042906|gb|EL115175.1|EL115175
EST:     GTAGCCTGGAGAGCCTTGAAGTTTTTACGAAATCTCTTTCGAATAATACA                         GCTGATTATTGTGGAGAGTCGAT
genomic: GTAGCCTGGAGAGCCTTGAAGTTTTTACGAAATCTCTTTCGAATAATACAgtaagttaca ... aaattttcagGCTGATTATTGTGGAGAGTCGAT
EST: gi|125050907|gb|EL123176.1|EL123176
EST:     AGCCTTGAAGTTTTTACGAAATCTCTTTCGAATAATACA                         GCTGATTATTGTGGAGAGTCGATCGATCTTCCTTTTAACTGGAAGATCATG
genomic: AGCCTTGAAGTTTTTACGAAATCTCTTTCGAATAATACAgtaagttaca ... aaattttcagGCTGATTATTGTGGAGAGTCGATCGATCTTCCTTTTAACTGGAAGATCATG
EST: gi|124724536|gb|EH815938.1|EH815938
EST:     GTAGCCTGGAGAGCCTTGAAGTTTTTACGAAATCTCTTTCGAATAATACA                         GCTGATTATTGTGGAGAGTCGATCGATCTTCCTTTTAACTGGAAGATCA
genomic: GTAGCCTGGAGAGCCTTGAAGTTTTTACGAAATCTCTTTCGAATAATACAgtaagttaca ... aaattttcagGCTGATTATTGTGGAGAGTCGATCGATCTTCCTTTTAACTGGAAGATCA


 atgc   intronic sequence     ATGC   exonic sequence

Intronic sequence truncated to 55 bases.

ttgtaaacacacaaacgttgcattgactgatcctatactcgacacaaattttcagGCTGATTATTGTGGAGAGTCGATCGATCTTCCTTTTAACTGGAAGATCATGGAGTGGGCTCACAAAACCAAGCAAGTATTAGCCTCTGCCAAGCTGCCTC
                        gactgat  putative branch site (score: 3)
                                                ttttc  putative PPT
                                           acaaatttt  TA-rich tract
















Putative cis-regulatory sequences

 atgc intron ATGC exonic elements by Pertea et al.
 ATGC exon atgc putative intronic elements
 ATGC putative exonic elements identified for retained introns
        10        20        30        40        50        60        70        80        90        100       110       120       130       140       150       160       170       180       190       200       210       220 
---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------|---------| 
gtaagttacatgtgaccaccatctttcattaaatgacgtagacacgtagttgtaaacacacaaacgttgcattgactgatcctatactcgacacaaattttcagGCTGATTATTGTGGAGAGTCGATCGATCTTCCTTTTAACTGGAAGATCATGGAGTGGGCTCACAAAACCAAGCAAGTATTAGCCTCTGCCAAGCTGCCTC

- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AAGCAA
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AGCAAG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  CAAGCT
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - AAGCTG
- - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - - -  AGCTGC